2PHH

THE COENZYME ANALOGUE ADENOSINE 5-DIPHOSPHORIBOSE DISPLACES FAD IN THE ACTIVE SITE OF P-HYDROXYBENZOATE HYDROXYLASE. AN X-RAY CRYSTALLOGRAPHIC INVESTIGATION

2PHH の概要

• エントリーDOI: 10.2210/pdb2phh/pdb
• 分子名称: P-HYDROXYBENZOATE HYDROXYLASE, ADENOSINE-5-DIPHOSPHORIBOSE, P-HYDROXYBENZOIC ACID, ... (4 entities in total)
• 機能のキーワード: oxidoreductase
• 由来する生物種: Pseudomonas fluorescens
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 45078.01

構造登録者

Van Derlaan, J.M.,Drenth, J.,Hol, W.G.J. (登録日: 1989-06-19, 公開日: 1990-10-15, 最終更新日: 2024-02-21)

主引用文献

van der Laan, J.M.,Schreuder, H.A.,Swarte, M.B.,Wierenga, R.K.,Kalk, K.H.,Hol, W.G.,Drenth, J.
The coenzyme analogue adenosine 5-diphosphoribose displaces FAD in the active site of p-hydroxybenzoate hydroxylase. An x-ray crystallographic investigation.
Biochemistry, 28:7199-7205, 1989

PubMed Abstract: p-Hydroxybenzoate hydroxylase (PHBH) is an NADPH-dependent enzyme. To locate the NADPH binding site, the enzyme was crystallized under anaerobic conditions in the presence of the substrate p-hydroxybenzoate, the coenzyme analogue adenosine 5-diphosphoribose (ADPR), and sodium dithionite. This yielded colorless crystals that were suitable for X-ray analysis. Diffraction data were collected up to 2.7-A resolution. A difference Fourier between data from these colorless crystals and data from yellow crystals of the enzyme-substrate complex showed that in the colorless crystals the flavin ring was absent. The adenosine 5'-diphosphate moiety, which is the common part between FAD and ADPR, was still present. After restrained least-squares refinement of the enzyme-substrate complex with the riboflavin omitted from the model, additional electron density appeared near the pyrophosphate, which indicated the presence of an ADPR molecule in the FAD binding site of PHBH. The complete ADPR molecule was fitted to the electron density, and subsequent least-squares refinement resulted in a final R factor of 16.8%. Replacement of bound FAD by ADPR was confirmed by equilibrium dialysis, where it was shown that ADPR can effectively remove FAD from the enzyme under mild conditions in 0.1 M potassium phosphate buffer, pH 8.0. The empty pocket left by the flavin ring is filled by solvent, leaving the architecture of the active site and the binding of the substrate largely unaffected.

PubMed: 2819062
DOI: 10.1021/bi00444a011

実験手法

X-RAY DIFFRACTION (2.7 Å)